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A parte gli scherzi... il mio q6600 con target di 8 ore fa circa gli stessi punti: come mai? :chebotta:
anche io...
ma ora dimmi come hai fatto??
Ah boh :uhm: A dire il vero mi ero deciso a passare del tutto a Poem per tutti gli errori che mi ha dato Rosetta due settimane fa. Adesso sono curioso.
Comunque imho i server di Rosetta hanno sballato qualcosa, una WU così corta non può dare una resa del genere. O magari è stato uno di quei calcoli fortunati. Come si faceva ad andare a vedere gli utenti che vincono la giornata col calcolo più preciso?
prima pagina di rosetta@home
Periodo di vari update per rosetta, siamo oggi a minirosetta 1.82, con nuove e interessanti feature.
Questo risponde anche a chi vuole un client GPU per rosetta, qua ne fanno uno nuovo CPU ogni due settimane, farne anche uno funzionante e ottimizzato come si deve per GPU... è leggermente improponibile.
Il fatto che rilascino un client cpu ogni 2 settimane non depone esattamente a loro favore... sa tantissimo di rincorsa dei bug che trovano. Ecco, in questo senso rilasciare anche uno per le gpu diventa improponibile.
Ma no hanno aggiunto nuove cose
- Support for Disulfides. New Science!
- Bug fixes for homology modelling with constraints
- SOme bugfixes in the watchdog
bugfixes è vero ma anche supporto a quel coso lì
Questa sembra grossa gente
Apr 19, 2010
Rosetta@home has been used to design a protein which may neutralize the flu virus. See David Baker's journal for details.
Citazione:
Message 65709 - Posted 9 Apr 2010 4:55:34 UTC
Last modified: 11 Apr 2010 5:29:05 UTCWhile the results are still preliminary, it appears that Rosetta@home has produced an extremely exciting result! As I described a few posts ago, many of you through rosetta@home contributed to the design of proteins predicted to bind very tightly to the influenza flu virus. We have now completed the first round of testing of the designed proteins, and one of them in the experiments conducted thus far clearly binds very tightly to the virus. Our data also indicate that the binding is at a site critical to the virus invasion of our cells, and so the protein may be able to neutralize the virus. I will keep you posted over the next couple of months as the picture becomes clearer--but for now--thank you all for making this possible!!
Citazione:
I was asked on the discussion thread about the timescale for learning more about the influenza binding protein I described in my previous post. I'm reposting my answer here:
We are doing a series of tests and control experiments in my lab in the next 2-3 weeks to rule out various possible artifacts. If, as we expect, the design passes with flying colors, we will send it to Scripps research institute where the ability of the design to neutralize the virus in cell based tests and the extent to which the design neutralizes different strains of virus will be measured. I would expect we would know the results of this in several months. We will also work to solve the crystal structure of the design bound to the virus to confirm the design binding mode. This hopefully will not take more than a few months as well.
I will keep all of you posted here about the results from these experiments. I am very optimistic, but one should be cautious about getting to excited too early about results like these--there are very many places where things can go wrong just with the biochemistry, and after this there are very many steps to actually make a protein into a drug--this is why there are so few new drugs for curing diseases being discovered.
For those of you who would like to try your hand at improving designed binders to the influenza virus, we are now posting virus inhibitor design challenges on foldit.
Citazione:
Experiments this past week have made us even more confident that the designed influenza binder is working as in the design model. we used "directed evolution" methods to identify amino acid changes that make the rosetta@home designed protein bind even more tightly to the virus. we found mutations at two positions: first, at an alanine residue in the design, the evolution process found a valine, and inspection of the design model showed some extra space around the alanine that would be filled by the slightly larger valine. the second amino acid change involved a charged aspartate residue in the design that in retrospect was too close to the virus protein--it was changed to a non charged residue which is less energetically costly to bury upon binding.
we are now combining these two substitutions, and expect that the combination should bind still more tightly to the virus than any protein we have tested so far. we should know later this week--I'll keep you posted!
Molto bene!
Anche se l'allarme per tale influenza è stato esasperato apposta.
Quasi quasi apro il thread "totopandemia: quale sarà la prossima temibile malattia?" in J4S...
Comunque non è citata esplicitamente "l'influenza che i giornalisti ci han propinato per mesi"...
Beh, quanti "flu virus" ci sono stati ultimamente?!
Parecchi, oltre a quello sbandierato dai giornalisti, almeno un altro :sisi: E poi quello "famoso" ormai è old...
http://boinc.bakerlab.org/rosetta/fo...ad.php?id=5308
Rosetta partecipa al CASP9, la nona edizione del CASP.
Dunque macinate, perchè ci sarà un sacco di lavoro da fare.
Inoltre adesso il server dove usavano gli algoritmi che noi abbiamo collaborato a migliorare per scopi pratici, adesso si appoggia pure lui a BOINC (prima riuscivano a macinar ciò internamente, ora evidentemente no, meglio, vuol dir che evidentemente più gente usa gli algoritmi di Rosetta)
Esattamente.
Prima rosetta usava BOINC per migliorare gli algoritmi e poi per i calcoli veri e propri metteva a disposizione degli scienziati un server chiamato Robetta dove appunto applicavano gli algoritmi fatti grazie a BOINC.
Adesso anche parte del lavoro di Robetta verrà svolto tramite BOINC.
Buon segno, no?
Direi proprio di si!
mi sono iscritto anche io!
:rullezza:
ciao Balzy, benvenuto! :D
posso chiederti con che macchina elabori?
After about 2 years of work, millions of CPU hours donated by volunteers from around the globe on Rosetta@HOME and a fruitful collaboration with Daniel Keedy and Jane and David Richardson at Duke University our paper on energy landscapes is finally out! Thank you to everyone who helped and especially to Daniel Keedy @ Duke and all who have donated computing time!
http://www.miketyka.com/2010/12/energy_landscapes/
e qua articolo completo
http://www.miketyka.com/data/mtyka_dkeedy_2010.pdf
Quanto spazio su hdd vi tiene Rosetta??? Ho appena scoperto sul mio quasi un giga!!!!! :o
320 Mb, ma ho un dual-core
Vabbeh, ma poi sono un deficiente: se imposto una cache di 3 giorni, ci credo che il n° di wu scaricate porta ad occupare così tanto spazio :rotolul:
nuova pubblicazione:
Stanno dandoci dentro i ragazzi di rosetta!Citazione:
Today's issue of Nature Structural Biology reports the determination of the structure of a protein by FoldIt players. This is exciting because it is perhaps the first example of a long standing scientific problem solved by non-scientists. You might read about this in your newspaper; here is a report that does a good job in explaining how FoldIt came out of Rosetta@home:
http://the-scientist.com/2011/09/18/...ein-structure/
Il numero di WUs pronte e impressionante!
http://boinc.bakerlab.org/rosetta/
*ene. :sisi:
Ottimo. Sperando la "pubblicità" porti sempre più persone a contribuire a progetti (medici, mia personale speranza) di calcolo distribuito.
Ho raggiunto quota 2000000!!:cheers::cheers:
Dopo piu` di 5 anni di cammino gran parte passati nel TGM Team! Un grande risultato di cui vado fiero! :D
E ora vediamo di fare i 2,5! :vendetta:
grande!!
I have exciting news. We and the University of Washington are starting up a new Institute for Protein Design to design new proteins to address current challenges in medicine, energy, and other areas. You can learn more about the institute at http://depts.washington.edu/ipd/. Rosetta@home is and will continue to be a critical part of our efforts. For every new potential protein therapeutic we design, we use Rosetta@home to test whether it will actually fold into the desired structure. And we need help! We have quite a backlog of exciting new designed proteins to test on Rosetta@home because we are designing proteins for quite a range of problems-new anti flu proteins, anti-cancer proteins, and new materials--and it takes 3000-5000 work units to test each one. This Rosetta@home testing is becoming the slow step in the whole design process, often taking over 10 days to complete. So please tell your friends and relations to join us!
A generous donor has provide funds which we want to use to invite 5-10 Rosetta@home participants to visit the Institute and see what we are trying to accomplish first hand. More on this in my next post.
Scritto da David Baker, of course. Esticazzi!!! Complimentissimi.